Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold2560
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 544
Length: 907
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.30
Warning! 64 characters in sequence are not A, C, G, or T
Found at i:550 original size:303 final size:304
Alignment explanation
Indices: 1--679 Score: 1074
Period size: 303 Copynumber: 2.2 Consensus size: 304
* * * *
1 CATTTTCTCGACGTGGTGTAACTCATTTGTTATTTTCATTTAGTGAAATAAATAATTTGAAACGA
1 CATTTTCTCGACGTGGTGTAACTCATTCGTTATTTACGTTTTGTGAAATAAATAATTTGAAACGA
* * * * * * *
66 TATTCGGGGTCAAATATTCATTTAAATTCGAGGCGCAAGTGCGATCAGGGGCAGCCTTTATATGA
66 TATT--TGCTCAAATATGCATTTAAATTCGAGGCGCAACTGCGATAAGGGGCAACCTTTATAGGA
131 ATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAAC
129 ATAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAAC
** *
196 TCCGCATTTAAGAGTGCTTGGGCTAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGT
194 TCCGCAGCTAAGAGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGT
261 GTTGCACCCCTCCCATTTTATTTCATATAATG-TTTTTTTTAGTTG
259 GTTGCACCCCTCCCATTTTATTTCATATAATGTTTTTTTTTAGTTG
* * *
306 CATTTTCTCGACGTGGTGTAACTCATTCGTTATTTGCGTTTTGTGAAACAAATAACTTGAAACGA
1 CATTTTCTCGACGTGGTGTAACTCATTCGTTATTTACGTTTTGTGAAATAAATAATTTGAAACGA
* * *
371 TATTTGCTCGAAGT-TGCATTTAAATTCGAGGTGCAACTGCGATAAGGGGCAATCTTTATAGGAA
66 TATTTGCTC-AAATATGCATTTAAATTCGAGGCGCAACTGCGATAAGGGGCAACCTTTATAGGAA
*
435 TAGATTGCGCCAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACT
130 TAGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACT
* * *
500 CCGCAGCTAAGCGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTTGGAAGTCCTGGTG
195 CCGCAGCTAAGAGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTG
*
565 TTGCACCCCTCCCATTTTATTTCGTATAATGTTTTTTTTTAGTTG
260 TTGCACCCCTCCCATTTTATTTCATATAATGTTTTTTTTTAGTTG
* *
610 CATTGTCTCGACGTGGTGTAACTCATTCGTTATTTACGTTTTGTGAAATAAACAATTTGAAACGA
1 CATTTTCTCGACGTGGTGTAACTCATTCGTTATTTACGTTTTGTGAAATAAATAATTTGAAACGA
675 TATTT
66 TATTT
680 NNNNNNNNNN
Statistics
Matches: 343, Mismatches: 29, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
303 199 0.58
304 81 0.24
305 63 0.18
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (304 bp):
CATTTTCTCGACGTGGTGTAACTCATTCGTTATTTACGTTTTGTGAAATAAATAATTTGAAACGA
TATTTGCTCAAATATGCATTTAAATTCGAGGCGCAACTGCGATAAGGGGCAACCTTTATAGGAAT
AGATTGCGCAAGAGTTGACGGGTGCGATCATACCAGCACTAATGCACCGGATCCCATCAGAACTC
CGCAGCTAAGAGTGCTTGGGCGAGAGTAGTACTAGGATGGGTGACCTCCTGGGAAGTCCTCGTGT
TGCACCCCTCCCATTTTATTTCATATAATGTTTTTTTTTAGTTG
Done.